Matteo Pellegrini Phd


Assistant Professor
Department of Molecular, Cell and Developmental Biology

4219 Life Science Bldg | 4215 Life Science Bldg
310-825-0012 | 310-206-3987 (fax)


  • AB, Columbia University, 1989
  • PhD, Stanford University, 1996

Research Interests

Matteo Pellegrini, Ph.D, combines statistics, computer
science, biology, and genetics to better understand stem cells. His research
focuses on the development of computational approaches to interpret genomic
data that allow him to develop large-scale models of transcriptional and
epigenetic regulation.

Using the latest
generation of DNA high-throughput sequencers, Pellegrini focuses on developing
both low-and high-level analyses of varied data. His goal is to make these
tools, and the databases that result from the sequence data, available to the
scientific community at UCLA and beyond.

With his lab’s focus
on bioinformatics – the application of statistics and computer science to the
field of molecular biology – Pellegrini collaborates with many scientific teams
at UCLA involved in genomic research. His lab was one of the first to sequence
a human embryonic stem cell in order to uncover its DNA methylation profile, a
crucial component of its epigenome.

Pellegrini hopes the
ability to determine genome-wide profiles of embryonic stem cells, and cells
reprogrammed to have the same abilities as embryonic stem cells, will result in
new and more efficient reprogramming techniques and an improved ability to
manipulate the cells for potential clinical uses.

In addition to his
affiliation with the Broad Stem Cell Research Center, Pellegrini is a member of
UCLA’s Jonsson Comprehensive Cancer Center, the ACCESS program, the California
Nanosystems Institute and the Institute for Genomics and Proteomics. A
professor of molecular, cell and developmental biology, Pellegrini earned his
doctorate at Stanford in 1996. He joined the UCLA faculty from Merck and
Company in 2005. He is also a co-director of the Broad Stem Cell Research
Center’s biosequencing core.

Pellegrini’s work is
funded by the National Science Foundation, the Air Force Office of Scientific
Research, the Department of Energy and the National Institutes of Health.


Recent Papers

  1. Pellegrini M., “Using phylogenetic profiles to predict functional relationships,” Methods Mol Biol. 2012;804:167-77.
  2. Pellegrini M., Ferrari R., “Epigenetic analysis: ChIP-chip and ChIP-seq,” Methods Mol Biol. 2012;802:377-87.
  3. Rao A.R., Pellegrini M., “Regulation of the yeast metabolic cycle by transcription factors with periodic activities,” BMC Syst Biol. 2011 Oct 12;5:160.
  4. Rodriguez J.A., Luria-Perez R., Lopez-Valdes H.E., Casero D., Daniels T.R., Patel S., Avila D., Leuchter R., So S., Ortiz-Sanchez E., Bonavida B., Martinez-Maza O., Charles A.C., Pellegrini M., Helguera G., Penichet M.L., “Lethal iron deprivation induced by non-neutralizing antibodies targeting transferrin receptor 1 in malignant B cells,” Leuk Lymphoma. 2011 Nov;52(11):2169-78. Epub 2011 Aug 28.
  5. Lopez D., Casero D., Cokus S.J., Merchant S.S., Pellegrini M., “Algal Functional Annotation Tool: a web-based analysis suite to functionally interpret large gene lists using integrated annotation and expression data,” BMC Bionformatics. 2011 Jul 12;12:282. 
  6. Chen P.Y., Feng S., Joo J.W., Jacobsen S.E., Pellegrini M., “A comparative analysis of DNA methylation across human embryonic stem cell lines,” Genome Biol. 2011 Jul 6;12(7):R62.
  7. Hegab A.E., Ha V.L. Gilvert J.L., Zhang K.X., Malkoski S.P., Chon A.T., Darmawan D.O., Bisht B., Ooi A.T., Pellegrini M., Nickerson D.W., Gomperts B.N., “Novel stem/progenitor cell population from murine tracheal submucosal gland ducts with multipotent regenerative potential,” Stem Cells. 2011 Aug;29(*0:1283-93.
  8. Hamidi H., Gustafason D., Pellegrini M., Gasson J., “Identification of novel targets of CSL-dependent Notch signaling in hematopoiesis,” PLoS One. 201;6(5):e20022. Epub 2011 May 26.
  9. Castruita M., Casero D., Karpowicz S.J., Kropat J., Vieler A., Hsieh S.I., Yan W., Cokus S., Loo J.A., Benning C., Pellegrini M., Merchant S.S., “Systems biology approach in Chlamydomonas reveals connections between copper nutrition and multiple metabolic steps,” Plant Cell. 2011 Apr;23(4):1273-92. Epub 2011 Apr 15.
  10. Rubbi L., Titz B., Brown L., Galvan E., Komisopoulou E., Chen S.S., Low T., Tahmasian M., Skaggs B., Muschen M., Pellegrini M., Graber T.G., “Global phosphoproteomics reveals crosstalk between Bcr-Abl and negative feedback mechanisms controlling Src signaling,” Sci Signal. 2011 mar 29;4(166):ra18.